Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
'29-Segment pdb2ogn10.i2209-2239
Source: [PDB-id:chain] 2ogn:0 (&rarr PDB)
Source: Information THE CRYSTAL STRUCTURE OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS COMPLEXED WITH THE PLEUROMUTILIN DERIVATIVE SB-280080
Source: Compound 23S RIBOSOMAL RNA
Source: Resolution 3.56 ANGSTROMS.
Position (2209, 2239)
Primary structure ('_': anchors) _GUAGAGCGCAAAGGUAGAAGGUGGCUUGA_
Bases with unusual sugar puckers
(Standard: C3'-endo)
8: C4'-exo, 18: C4'-exo, 19: C4'-exo, 27: C4'-exo, 29: C4'-exo, 30: C4'-exo
Bases with unusual glycosidic-bond configuration
(Standard: anti)
5: syn, 20: syn, 29: syn
Tertiary structure: Stacked bases
# Position 1 Position 2 Stacking direction
1 1 2
2 6 7
3 7 8
4 11 12
5 12 13
6 13 14
7 14 15
8 17 19
9 19 21
10 21 22
11 24 25
12 25 26
13 26 27
14 27 28
Tertiary structure: Base-pairs
(anchor pairs)
# Position 1 Position 2 Edges Configuration Single?
1 3 4 Hoogsteen/O2' ?
2 4 17 Bifurcated/O2' ?
3 8 15 Watson-Crick/Watson-Crick cis
4 17 18 O2'/Sugar ?
5 17 19 C/O2' ?
6 29 31 Hoogsteen/Sugar cis y
Downloads Atom coordinates (PDB format)
Contact annotation (MC-Annotate format)
3D Structure Structure Graph
Structural Clusters